Run the NGS analysis pipeline from a configuration file
Usage
runPipelineConfig(config_filename, config_update)
Arguments
config_filename
Path to a pipeline configuration file
config_update
A list of name value pairs that will update the config parameters
Value
Nothing
Details
This is the launcher function for all
pipeline runs. It will do some
preprocessing steps, then aligns the reads,
counts overlap with genomic Features such as genes, exons etc
and applies a variant caller.